Locus 3882

Sequence ID 3R_DroMel_CAF1
Location 10,557,849 – 10,557,956
Length 107
Max. P 0.572913
window6223

overview

Window 3

Location 10,557,849 – 10,557,956
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.36
Mean single sequence MFE -23.68
Consensus MFE -13.24
Energy contribution -13.72
Covariance contribution 0.48
Combinations/Pair 1.18
Mean z-score -1.87
Structure conservation index 0.56
SVM decision value 0.08
SVM RNA-class probability 0.572913
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10557849 107 + 27905053
AGCUGUCACUUGGCAUUUUAUUGCCAUCAGAUAGCUGUAC------UCACAACAAAAUUCUACGACAACCCAACCGACAAAGCCCACACGAUGAUA-------GUUAAUUAAAAAGUUGU
(((((((...(((((......)))))...)))))))....------..(((((.........((..........))...............((((.-------....))))....))))) ( -19.60)
>DroSec_CAF1 6788 105 + 1
AGCUGUCACUUGGCAUUUUAUUGCCAUCAGAUAGCUGUAC------UCACAACAAAAGUCUACGACAACCCAUU--UCAGAGUCCACAUGAUGAUG-------UUUAAUUAAAAAGUUGU
(((((((...(((((......)))))...)))))))....------..(((((....(((...)))....((((--(((.........))).))))-------............))))) ( -23.90)
>DroSim_CAF1 6937 105 + 1
AGCUGUCACUUGGCAUUUUAUUGCCAUCAGAUAGCUGUAC------UCACAACAAAAGUCUACGACAACCCAUU--UCAAAGUCCACAUGAUGAUG-------UUUAAUUAAAUAGUUGU
(((((((...(((((......)))))...)))))))....------..(((((....(((...)))....((((--(((.........))).))))-------............))))) ( -23.10)
>DroEre_CAF1 15975 118 + 1
AGCUGUCACUUGGCAUUUUAUUGCCAUAAGAGUGCUGUACGAGAGUUCAGAACAGAAGUCUGUGGCAACCCACU--UCAAAGUCCACAUGAUGAUGGACUUGCUUUAAUUAAAAAGCUAU
...((((((.(((((......))))).....((.(((.((....)).))).))........)))))).......--...((((((((.....).)))))))(((((......)))))... ( -32.90)
>DroYak_CAF1 16131 91 + 1
AGCUGUCACUUGGCACUUUAUUGCCAUAAG--------------------AACAAAAGUUGGUGGCAACCCAUU--UCAAAGUCCACAUGAUGAUG-------UUUAAUUAAAAAGCUGU
((((((((..(((.(((((.(((((((...--------------------(((....))).)))))))......--..))))))))..))))(((.-------....)))....)))).. ( -18.90)
>consensus
AGCUGUCACUUGGCAUUUUAUUGCCAUCAGAUAGCUGUAC______UCACAACAAAAGUCUACGACAACCCAUU__UCAAAGUCCACAUGAUGAUG_______UUUAAUUAAAAAGUUGU
(((((((...(((((......)))))...))))))).........................(((((...............(....)....((((............))))....))))) (-13.24 = -13.72 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:29 2006